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MCL coexpression mm9:1049: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0001709;cell fate determination;0.000516535071736775;13389,17172!GO:0007219;Notch signaling pathway;0.00114520659288295;13389,17172!GO:0045165;cell fate commitment;0.00213663507368652;13389,17172!GO:0014017;neuroblast fate commitment;0.00213663507368652;17172!GO:0014016;neuroblast differentiation;0.00213663507368652;17172!GO:0007400;neuroblast fate determination;0.00213663507368652;17172!GO:0060165;regulation of timing of subpallium neuron differentiation;0.00213663507368652;17172!GO:0060164;regulation of timing of neuron differentiation;0.00213663507368652;17172!GO:0060163;subpallium neuron fate commitment;0.00379825424110381;17172!GO:0007389;pattern specification process;0.00506273949032288;13389,17172!GO:0048505;regulation of timing of cell differentiation;0.00610333384880086;17172!GO:0007386;compartment specification;0.00610333384880086;13389!GO:0040034;regulation of development, heterochronic;0.00610333384880086;17172!GO:0021544;subpallium development;0.00610333384880086;17172!GO:0005112;Notch binding;0.00683535936358031;13389!GO:0048339;paraxial mesoderm development;0.0138789988942662;13389!GO:0007399;nervous system development;0.0199200831650066;13389,17172!GO:0048663;neuron fate commitment;0.0199200831650066;17172!GO:0021537;telencephalon development;0.0206666928430308;17172!GO:0007405;neuroblast proliferation;0.0219455261865678;17172!GO:0045664;regulation of neuron differentiation;0.0219455261865678;17172!GO:0001756;somitogenesis;0.0255946941180428;13389!GO:0010001;glial cell differentiation;0.0281835305557912;17172!GO:0042063;gliogenesis;0.0286519160840723;17172!GO:0035282;segmentation;0.0286519160840723;13389!GO:0007498;mesoderm development;0.0321292377309846;13389!GO:0001764;neuron migration;0.0347163224574104;17172!
|gostat_on_MCL_coexpression=GO:0001709;cell fate determination;0.000516535071736775;13389,17172!GO:0007219;Notch signaling pathway;0.00114520659288295;13389,17172!GO:0045165;cell fate commitment;0.00213663507368652;13389,17172!GO:0014017;neuroblast fate commitment;0.00213663507368652;17172!GO:0014016;neuroblast differentiation;0.00213663507368652;17172!GO:0007400;neuroblast fate determination;0.00213663507368652;17172!GO:0060165;regulation of timing of subpallium neuron differentiation;0.00213663507368652;17172!GO:0060164;regulation of timing of neuron differentiation;0.00213663507368652;17172!GO:0060163;subpallium neuron fate commitment;0.00379825424110381;17172!GO:0007389;pattern specification process;0.00506273949032288;13389,17172!GO:0048505;regulation of timing of cell differentiation;0.00610333384880086;17172!GO:0007386;compartment specification;0.00610333384880086;13389!GO:0040034;regulation of development, heterochronic;0.00610333384880086;17172!GO:0021544;subpallium development;0.00610333384880086;17172!GO:0005112;Notch binding;0.00683535936358031;13389!GO:0048339;paraxial mesoderm development;0.0138789988942662;13389!GO:0007399;nervous system development;0.0199200831650066;13389,17172!GO:0048663;neuron fate commitment;0.0199200831650066;17172!GO:0021537;telencephalon development;0.0206666928430308;17172!GO:0007405;neuroblast proliferation;0.0219455261865678;17172!GO:0045664;regulation of neuron differentiation;0.0219455261865678;17172!GO:0001756;somitogenesis;0.0255946941180428;13389!GO:0010001;glial cell differentiation;0.0281835305557912;17172!GO:0042063;gliogenesis;0.0286519160840723;17172!GO:0035282;segmentation;0.0286519160840723;13389!GO:0007498;mesoderm development;0.0321292377309846;13389!GO:0001764;neuron migration;0.0347163224574104;17172!
}}
}}

Revision as of 12:51, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:86954204..86954231,-p@chr10:86954204..86954231
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Mm9::chr10:86954608..86954619,-p@chr10:86954608..86954619
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Mm9::chr10:86955227..86955238,-p@chr10:86955227..86955238
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Mm9::chr10:86956396..86956411,-p1@Ascl1
Mm9::chr13:83871972..83871975,+p2@C130071C03Rik
Mm9::chr5:124801192..124801233,-p4@Cdk2ap1
Mm9::chr7:29086791..29086810,-p1@Dll3


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0001709cell fate determination0.000516535071736775
GO:0007219Notch signaling pathway0.00114520659288295
GO:0045165cell fate commitment0.00213663507368652
GO:0014017neuroblast fate commitment0.00213663507368652
GO:0014016neuroblast differentiation0.00213663507368652
GO:0007400neuroblast fate determination0.00213663507368652
GO:0060165regulation of timing of subpallium neuron differentiation0.00213663507368652
GO:0060164regulation of timing of neuron differentiation0.00213663507368652
GO:0060163subpallium neuron fate commitment0.00379825424110381
GO:0007389pattern specification process0.00506273949032288
GO:0048505regulation of timing of cell differentiation0.00610333384880086
GO:0007386compartment specification0.00610333384880086
GO:0040034regulation of development, heterochronic0.00610333384880086
GO:0021544subpallium development0.00610333384880086
GO:0005112Notch binding0.00683535936358031
GO:0048339paraxial mesoderm development0.0138789988942662
GO:0007399nervous system development0.0199200831650066
GO:0048663neuron fate commitment0.0199200831650066
GO:0021537telencephalon development0.0206666928430308
GO:0007405neuroblast proliferation0.0219455261865678
GO:0045664regulation of neuron differentiation0.0219455261865678
GO:0001756somitogenesis0.0255946941180428
GO:0010001glial cell differentiation0.0281835305557912
GO:0042063gliogenesis0.0286519160840723
GO:0035282segmentation0.0286519160840723
GO:0007498mesoderm development0.0321292377309846
GO:0001764neuron migration0.0347163224574104



Relative expression of the co-expression cluster over median <br>Analyst:




Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs




JASPAR motifs


Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}

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